1ASS | pdb_00001ass

APICAL DOMAIN OF THE CHAPERONIN FROM THERMOPLASMA ACIDOPHILUM

• PDB DOI: https://doi.org/10.2210/pdb1ASS/pdb

• Classification: CHAPERONIN
• Organism(s): Thermoplasma acidophilum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 1997-08-11 Released: 1997-12-03 
• Deposition Author(s): Klumpp, M., Baumeister, W., Essen, L.-O.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.251 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.222 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Literature

Structure of the substrate binding domain of the thermosome, an archaeal group II chaperonin.

Klumpp, M., Baumeister, W., Essen, L.O.

(1997) Cell 91: 263-270

• PubMed: 9346243 
• DOI: https://doi.org/10.1016/s0092-8674(00)80408-0
• Primary Citation of Related Structures:  
  1ASS, 1ASX


• PubMed Abstract: 
  

  The crystal structure of the substrate binding domain of the thermosome, the archaeal group II chaperonin, has been determined at 2.3 A resolution. The core resembles the apical domain of GroEL but lacks the hydrophobic residues implied in binding of substrates to group I chaperonins. Rather, a large hydrophobic surface patch is found in a novel helix-turn-helix motif, which is characteristic of all group II chaperonins including the eukaryotic TRiC/CCT complex. Models of the holochaperonin, which are consistent with cryo electron microscopy data, suggest a dual role of this helical protrusion in substrate binding and controlling access to the central cavity independent of a GroES-like cochaperonin.

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Organizational Affiliation: 

Department of Molecular Structural Biology, Max-Planck-Institute for Biochemistry, Planegg-Martinsried, Germany.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 18.13 kDa 
• Atom Count: 1,226 
• Modelled Residue Count: 152 
• Deposited Residue Count: 159 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
THERMOSOME	A	159	Thermoplasma acidophilum	Mutation(s): 0  Gene Names: THSA
UniProt
Find proteins for P48424 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore P48424  Go to UniProtKB:  P48424

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A], D [auth A], E [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
NA	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.251 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.222 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.35	α = 90
b = 82.35	β = 90
c = 77.83	γ = 120

Software Package:

Software Name	Purpose
MLPHARE	phasing
SOLOMON	phasing
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-12-03 
Deposition Author(s): Klumpp, M., Baumeister, W., Essen, L.-O.

Revision History  

• Version 1.0: 1997-12-03
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Derived calculations